Antigen

Antigen Class

TFs and others

Antigen

Ctcf

Cell type

Cell type Class

Neural

Cell type

Neural Stem Cells

MeSH Description

Self-renewing cells that generate the main phenotypes of the nervous system in both the embryo and adult. Neural stem cells are precursors to both NEURONS and NEUROGLIA.

Sample

source_name

NSC

cell line

NSC

cell type

Primary neural stem cells

genotype

Smchd1 GFP/GFP

strain

C57BL/6

chip antibody

Cell Signalling Technologies, D31H2

Sequenced DNA Library

library_name

GSM7134806

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

CTCF ChIP-seq libraries were prepared from approximately 15 million female NSCs using the ChIP-IT High Sensitivity kit (Active Motif), according to the manufacturer's instruction and 10 µg of CTCF antibody (Cell Signalling Technologies, D31H2). Libraries were generated with an Illumina TruSeq DNA Sample Preparation Kit. 200- to 400-bp fragments were size-selected with AMPure XP magnetic beads. Libraries were quantified with a D100 tape in a 4200 Tapestation (Agilent). Libraries were pooled and sequenced on the Illumina NextSeq2000 platform, with 75-bp single-end reads.

Sequencing Platform

instrument_model

NextSeq 2000

mm10

Number of total reads

55703933

Reads aligned (%)

96.6

Duplicates removed (%)

43.9

Number of peaks

16962 (qval < 1E-05)

mm9

Number of total reads

55703933

Reads aligned (%)

96.3

Duplicates removed (%)

43.9

Number of peaks

17032 (qval < 1E-05)